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Commits on Aug 28, 2019

• Fix YAML loader warning.

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Commits on May 24, 2016

• Use consistent highlighting.

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• Add how to specific missing family information to PED documentation.

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Commits on Jan 25, 2016

• Provide support for the UGE cluster scheduler.

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Commits on Dec 11, 2015

• Improve formatting of PED section.

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Commits on Mar 17, 2015

• Change TPED test expected values to the variant_ids.

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• Skip URLs in requirements.txt in setup.py.

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Commits on Feb 12, 2015

• Use the variant_id as the name of the TPED features.

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Commits on Feb 11, 2015

• Allow the --sample-filter to work with --format TPED.

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Commits on Feb 9, 2015

• Add 'not' option to --in filtering.

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• Refactor to use dictionary comprehensions.

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• Order test results to match the new variant_sample ordering.

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• Speed improvement for genotype queries with many samples.

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Commits on Dec 22, 2014

• Remove unused header variable.

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• Fix PED fields to match the spec when loaded into the database.

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Commits on Oct 25, 2014

• Merge pull request #342 from Shapez/master

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Commits on Aug 26, 2014

• Merge branch 'master' of github.com:arq5x/gemini

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• Explicitly set ref alt ordering for TPED id.

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Commits on Aug 6, 2014

• Fix the unit test for --format tped.

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• Fix for not finding the installed extra annotations.

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• Remove stale databases before running the tests.

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Commits on Aug 4, 2014

• Fix TPED output.

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Commits on Aug 3, 2014

• Make top-level imports be lazy.

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Commits on Aug 2, 2014

• Extend samples table with new columns when amending.

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Commits on Mar 28, 2014

• Merge branch 'master' of github.com:arq5x/gemini

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• Add indexes to user-supplied annotations.

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Commits on Dec 4, 2013

• Added ability to dump out intermediate T-scores during permutation

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Commits on Nov 7, 2013

• Added --show-families option.

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• Merge branch 'master' of github.com:arq5x/gemini

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• Indicies -> indices.

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• Added --show-families option to query output.

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Commits on Nov 6, 2013

• Fixed display error when using --carrier-status-by-phenotype

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Commits on Oct 30, 2013

• Fixed argument name.

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• Fixed formatting.

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• Added gemini amend to the documentation.

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